Merge pull request #73 from catalystneuro/visual_coding

Visual Coding (Ophys) Tutorial

.codespellrc

@@ -3,4 +3,4 @@ skip = .git,*.pdf,*.svg
 # all images and other binaries embedded in .ipynb jsons
 ignore-regex = "image/png": ".*|^ *".*data:\S+;base64.*
 # nd - people just like it
-ignore-words-list = nd
+ignore-words-list = nd,trough

000728/AllenInstitute/README.md

@@ -0,0 +1,19 @@
+# Allen Institute - Visual Coding - Optical Physiology
+
+This notebook and accompanying JSON metadata files are a full demo of the Visual Coding (Ophys) dataset corresponding to Dandiset `000728`.
+
+The notebook has been confirmed to work in the frozen environment specified by the `environment.yaml` file.
+
+To install this environment for yourself, navigate into `example-notebooks/000728/AllenInstitute/` and run:
+
+```bash
+conda env create -f visual_coding_ophys_notebook_environment.yml
+```
+
+then
+
+```bash
+conda activate visual_coding_ophys_notebook
+```
+
+This notebook was derived from past work in the [Brain Observatory Examples](https://github.com/AllenInstitute/brain_observatory_examples) repository, in particular [the 2022 version](https://github.com/AllenInstitute/brain_observatory_examples/blob/d579969f2a5015a77da4615d4686f94a9f6121a4/BMM%202022/2P%20Visual%20Coding%20Tutorial.ipynb). It has been adapted to run without use of the AllenSDK and only rely on internal NWB file (version 2) content and the accompanying JSON files.